getIPS: Calculation of Immunophenoscore

In Liulab/PD1highCD8Tscore: Quantify PD-1hiCD8+ T cells in tumor environment

Description

Immunophenoscore (IPS) was calculated by a script supplied by The Cancer Immunome Atlas

Usage

getIPS(gene_expression, IPSG = IPSG)

Arguments

gene_expression	A gene expression matrix contains each gene (in rows) and sample (in columns).
IPSG	gene set in Immunophenoscore

References

Charoentong P., Finotello F., Angelova M., et al. Pan-cancer Immunogenomic Analyses Reveal Genotype-Immunophenotype Relationships and Predictors of Response to Checkpoint Blockade. Cell Rep. Jan 3 2017;18(1):248-262.

Examples

data(IPSG)
data(Cho)
getIPSRes <-getIPS(Cho$"RNA",IPSG = IPSG)

Liulab/PD1highCD8Tscore documentation built on March 15, 2021, 1:14 a.m.